stc1 (SPBP8B7.28c)


Gene Standard Namestc1 Characterisation Statuspublished
Systematic IDSPBP8B7.28c Feature Typeprotein coding
Synonyms Name DescriptionSiRNA To Chromatin
ProductLIM-like protein linking chromatin modification to RNAi, Stc1 Product Size215aa, 25.07 kDa
Genomic Location Chromosome II, 3691942-3691008 (935nt); CDS:3691848-3691201 (648nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding848
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
CLRC ubiquitin ligase complex6
Annotation ExtensionEvidenceWith/FromReference
nuclear pericentric heterochromatin36
Annotation ExtensionEvidenceWith/FromReference
nucleolus359
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to bortezomib256
expressivity FYPO_EXT:0000003stc1ΔNull
sensitive to camptothecinstc1ΔNull214
sensitive to thiabendazolestc1ΔNull185
viable vegetative cell populationstc1ΔNull3781

Cell Phenotype

Term NameAlleleExpressionCount
abnormal actin cortical patch localizationstc1ΔNull54
abnormal actin cytoskeletonstc1ΔNull43
abnormal meiosisstc1ΔNull113
abolished histone H3-K9 dimethylation at centromerestc1ΔNull1
centromeric outer repeat transcript-derived siRNA absentstc1ΔNull5
decreased chromatin silencing at centromere outer repeat regionstc1ΔNull30
decreased histone H3-K9 dimethylation at centromere outer repeat8
expressivity FYPO_EXT:0000003stc1ΔNull
decreased protein localization to heterochromatin at centromere outer repeat6
affecting swi6stc1ΔNull
increased minichromosome loss upon segregation during vegetative growthstc1ΔNull12
lagging mitotic chromosomesstc1ΔNull19
normal centromeric outer repeat transcript-derived siRNA levelstc1ΔNull8
normal chromatin silencing at silent mating-type cassettestc1ΔNull10
normal chromatin silencing at telomerestc1ΔNull6
viable curved vegetative cell61
penetrance FYPO_EXT:0000003stc1ΔNull
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
136919423691008

UTRs

Region Coordinates Reference
five_prime_UTR3691942..3691849PMID:21511999
three_prime_UTR3691200..3691008PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF12898 Pfam IPR024630 Stc1 domain 41 122 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 116.63 Da
Charge -3.00
Isoelectric point 5.69
Molecular weight 25.07 kDa
Number of residues 215
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS146 1670
present during mitotic M phaseS169
present during mitotic M phaseS146
Annotation ExtensionEvidenceResidueReference
experimental evidence S146 PMID:24763107
present during mitotic M phase experimental evidence S146 PMID:21712547
present during mitotic M phase experimental evidence S169 PMID:21712547
O-phospho-L-threonine 693
present during mitotic M phaseT172
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T172 PMID:21712547
Sequence
Gene Expression

Quantitative Gene Expression

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.67during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.2during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
no apparent S. cerevisiae ortholog597
conserved in fungi only619
conserved in fungi4604
Orthologs

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
ned8ubiquitin-like protein modifier Ned8 Affinity Capture-MSPMID:20211136
ebp2rRNA processing protein Ebp2 (predicted) Affinity Capture-MSPMID:20211136
SPAC1F12.07phosphoserine aminotransferase (predicted) Affinity Capture-MSPMID:20211136
raf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Affinity Capture-WesternPMID:23613586
Affinity Capture-WesternPMID:20211136
Affinity Capture-MS
mas5DNAJ domain protein Mas5 (predicted) Affinity Capture-MSPMID:20211136
rik1silencing protein Rik1 Affinity Capture-WesternPMID:23613586
Affinity Capture-MSPMID:20211136
Affinity Capture-Western
Affinity Capture-WesternPMID:22319459
Reconstituted ComplexPMID:24449894
raf2Rik1-associated factor Raf2 Affinity Capture-WesternPMID:23613586
Affinity Capture-MSPMID:20211136
Affinity Capture-Western
Reconstituted ComplexPMID:24449894
stc1LIM-like protein linking chromatin modification to RNAi, Stc1 Affinity Capture-MSPMID:20211136
ago1argonaute Reconstituted ComplexPMID:23613586
Reconstituted ComplexPMID:20211136
Affinity Capture-Western
SPAC23G3.06U3 snoRNP protein Nop58 (predicted) Affinity Capture-MSPMID:20211136
clr4histone H3 lysine methyltransferase Clr4 Affinity Capture-WesternPMID:23613586
Affinity Capture-WesternPMID:20211136
ers1RNA-silencing factor Ers1 Affinity Capture-WesternPMID:22733737
pcu4cullin 4 Affinity Capture-MSPMID:20211136
SPBC646.10cU3 snoRNP protein Nop56 (predicted) Affinity Capture-MSPMID:20211136
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
trm10tRNA m(1)G methyltransferase Trm10 Positive GeneticPMID:22681890
SPAC343.04cWD repeat protein, human WDR26 family, ubiquitin ligase complex subunit (predicted) Negative GeneticPMID:22681890
cdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
rik1silencing protein Rik1 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
clr4histone H3 lysine methyltransferase Clr4 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
toe2transcription factor, zf-fungal binuclear cluster type (predicted) Negative GeneticPMID:22681890
sap14U2 snRNP-associated protein SF3B14 Sap14 Negative GeneticPMID:22681890
swd1Set1C complex subunit Swd1 Positive GeneticPMID:22681890
sfp1transcription factor Sfp1 (predicted) Negative GeneticPMID:22681890
raf2Rik1-associated factor Raf2 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
par2protein phosphatase regulatory subunit Par2 Positive GeneticPMID:22681890
ers1RNA-silencing factor Ers1 Positive GeneticPMID:22681890
eso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Negative GeneticPMID:23050226
rad57RecA family ATPase Rad57/Rhp57 Positive GeneticPMID:22681890
dsk1SR protein-specific kinase Dsk1 Positive GeneticPMID:22681890
top1DNA topoisomerase I Positive GeneticPMID:22681890
vrp1verprolin Positive GeneticPMID:22681890
laf1clr6 L associated factor 1 Laf1 Negative GeneticPMID:22681890
raf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Phenotypic SuppressionPMID:20211136
SPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
nsk1Clp1-interacting, microtubule plus-end binding Nsk1 Negative GeneticPMID:22681890
cyp7cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp7 (predicted) Negative GeneticPMID:22681890
fft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
mst2histone acetyltransferase Mst2 Synthetic RescuePMID:21289066
hhp2serine/threonine protein kinase Hhp2 Positive GeneticPMID:22681890
sir2Sir2 family histone deacetylase Sir2 Phenotypic SuppressionPMID:20211136
External References
Database Identifier Description
NBRP SPBP8B7.28c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBP8B7.28c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBP8B7.28c BioGRID Interaction Datasets
Expression Viewer SPBP8B7.28c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBP8B7.28c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBP8B7.28c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBP8B7.28c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBP8B7.28c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBP8B7.28c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBP8B7.28c Cell Cycle Data
GEO SPBP8B7.28c GEO profiles
PInt SPBP8B7.28c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBP8B7.28c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBP8B7.28c Fission yeast phenotypic data & analysis
SPD / RIKEN07/07D12Orfeome Localization Data
UniProtKB/SwissProtO94276Meiotic chromosome segregation protein P8B7.28c
ModBaseO94276Database of comparative protein structure models
STRINGO94276Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596535LIM-like protein linking chromatin modification to RNAi, Stc1
RefSeq mRNANM_001022456972h- LIM-like protein linking chromatin modification to RNAi, Stc1 (stc1), mRNA
ePDB2LUYThe European PDB
PDB2LUYPDB
PDBsum2LUYPDBsum
European Nucleotide ArchiveCAA21813.1ENA Protein Mapping
UniParcUPI000006B57EUniProt Archive

Literature for stc1

Search: Europe PMC or PubMed

Release Version: PomBase:25_48 - 10 Jan 2015